YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|229841054, gi...
Organism:	Yersinia pestis biovar Orientalis str. PEXU2
Length:	379 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

[What does the above image mean?]

[Show Ginzu Version Information]

Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for gi|229841054, gi....

Description	E-value	Query Range	Subject Range
gi\|213999925 - gi\|213999925\|ref\|ZP_03410660.1\| cytochrome d ubiquinol oxidase subunit II [Salmonella enterica subsp... gi\|213649146 - gi\|213649146\|ref\|ZP_03379199.1\| cytochrome d ubiquinol oxidase subunit II [Salmonella enterica subsp... gi\|56128399, gi\|... - gi\|56414142\|ref\|YP_151217.1\| cytochrome d ubiquinol oxidase subunit II [Salmonella enterica subsp. e... lcl\|NC_016856.1_... - [gene=cydB] [protein=cytochrome d terminal oxidase polypeptide subunit II] [protein_id=YP_005236462.... gi\|205322564, gi... - gi\|205322564\|gb\|EDZ10403.1\| cytochrome d ubiquinol oxidase, subunit II [Salmonella enterica subsp. e... gi\|161364390, gi... - gi\|161615026\|ref\|YP_001588991.1\| hypothetical protein SPAB_02786 [Salmonella enterica subsp. enteric... gi\|29138178, gi\|... - gi\|29142547\|ref\|NP_805889.1\| cytochrome d ubiquinol oxidase subunit II [Salmonella enterica subsp. e... gi\|205347173, gi... - gi\|205347173\|gb\|EDZ33804.1\| cytochrome d ubiquinol oxidase, subunit II [Salmonella enterica subsp. e... gi\|16759680 - gi\|16759680\|ref\|NP_455297.1\| cytochrome d ubiquinol oxidase subunit II [Salmonella enterica subsp. e... gi\|168240599, gi... - gi\|205340298\|gb\|EDZ27062.1\| cytochrome d ubiquinol oxidase, subunit II [Salmonella enterica subsp. e... gi\|16501973, gi\|... - gi\|25285480\|pir\|\|AI0591 cytochrome d ubiquinol oxidase chain II [imported] - Salmonella enterica sub... gi\|168238891, gi... - gi\|197288371\|gb\|EDY27752.1\| cytochrome d ubiquinol oxidase, subunit II [Salmonella enterica subsp. e... gi\|16764111, gi\|... - gi\|16764111\|ref\|NP_459726.1\| cytochrome d terminal oxidase polypeptide subunit II [Salmonella typhim... gi\|205328885, gi... - gi\|205328885\|gb\|EDZ15649.1\| cytochrome d ubiquinol oxidase, subunit II [Salmonella enterica subsp. e... gi\|238911673 - gi\|238911673\|ref\|ZP_04655510.1\| cytochrome d ubiquinol oxidase subunit II [Salmonella enterica subsp... gi\|205352005, gi... - gi\|205352005\|ref\|YP_002225806.1\| cytochrome d ubiquinol oxidase subunit II [Salmonella enterica subs... gi\|204930081, gi... - gi\|204930081\|ref\|ZP_03221102.1\| cytochrome d ubiquinol oxidase, subunit II [Salmonella enterica subs... gi\|200390926, gi... - gi\|200390926\|ref\|ZP_03217537.1\| cytochrome d ubiquinol oxidase, subunit II [Salmonella enterica subs... gi\|198244832, gi... - gi\|198244832\|ref\|YP_002214711.1\| cytochrome d ubiquinol oxidase, subunit II [Salmonella enterica sub... gi\|213425390 - gi\|213425390\|ref\|ZP_03358140.1\| cytochrome d ubiquinol oxidase subunit II [Salmonella enterica subsp... gi\|213423948 - gi\|213423948\|ref\|ZP_03356928.1\| cytochrome d ubiquinol oxidase subunit II [Salmonella enterica subsp... gi\|213051759 - gi\|213051759\|ref\|ZP_03344637.1\| cytochrome d ubiquinol oxidase subunit II [Salmonella enterica subsp... gi\|206707988, gi... - gi\|207856185\|ref\|YP_002242836.1\| cytochrome d ubiquinol oxidase subunit II [Salmonella enterica subs... gi\|194450450, gi... - gi\|194450450\|ref\|YP_002044775.1\| cytochrome d ubiquinol oxidase, subunit II [Salmonella enterica sub... gi\|194443845, gi... - gi\|194443845\|ref\|YP_002039982.1\| cytochrome d ubiquinol oxidase, subunit II [Salmonella enterica sub... gi\|168820124, gi... - gi\|205343253\|gb\|EDZ30017.1\| cytochrome d ubiquinol oxidase, subunit II [Salmonella enterica subsp. e... gi\|168467696, gi... - gi\|195629191\|gb\|EDX48559.1\| cytochrome d ubiquinol oxidase, subunit II [Salmonella enterica subsp. e... gi\|197363064, gi... - gi\|197363064\|ref\|YP_002142701.1\| cytochrome d ubiquinol oxidase subunit II [Salmonella enterica subs... gi\|197264628, gi... - gi\|197264628\|ref\|ZP_03164702.1\| cytochrome d ubiquinol oxidase, subunit II [Salmonella enterica subs... gi\|197247810, gi... - gi\|197247810\|ref\|YP_002145702.1\| cytochrome d ubiquinol oxidase, subunit II [Salmonella enterica sub... gi\|194709910, gi... - gi\|194734408\|ref\|YP_002113849.1\| cytochrome d ubiquinol oxidase, subunit II [Salmonella enterica sub...	0.0	[1..379]	[1..379]
gi\|62179315, gi\|... - gi\|62179315\|ref\|YP_215732.1\| cytochrome d terminal oxidase polypeptide subunit II [Salmonella enteri...	0.0	[1..379]	[1..379]
gi\|167399993, gi... - gi\|167399993\|ref\|ZP_02305511.1\| cytochrome d ubiquinol oxidase, subunit II [Yersinia pestis biovar A... gi\|108806593, gi... - gi\|108806593\|ref\|YP_650509.1\| cytochrome D ubiquinol oxidase subunit II [Yersinia pestis Antiqua], g...	0.0	[1..379]	[1..379]
gi\|45440872, gi\|... - gi\|45440872\|ref\|NP_992411.1\| cytochrome D ubiquinol oxidase subunit II [Yersinia pestis biovar Micro...	0.0	[1..379]	[1..379]
gi\|157158603, gi... - gi\|75189755\|ref\|ZP_00703022.1\| COG1294: Cytochrome bd-type quinol oxidase, subunit 2 [Escherichia co...	0.0	[1..379]	[1..379]
EG10174 - cytochrome d terminal oxidase, subunit II / Cytochrome d (bd-I) ubiquinol oxidase subunit 2; upregul... gi\|227838721, gi... - gi\|227884300\|ref\|ZP_04002105.1\| cytochrome d ubiquinol oxidase subunit II [Escherichia coli 83972], ... gi\|226898514, gi... - gi\|237707304\|ref\|ZP_04537785.1\| cytochrome d terminal oxidase polypeptide subunit II [Escherichia sp... gi\|238899998, gi... - gi\|238899998\|ref\|YP_002925794.1\| cytochrome d terminal oxidase, subunit II [Escherichia coli BW2952]... gi\|242376495, gi... - gi\|251784222\|ref\|YP_002998526.1\| hypothetical protein B21_00682 [Escherichia coli BL21], gi\|24237649... gi\|254287591, gi... - gi\|254287591\|ref\|YP_003053339.1\| cytochrome d terminal oxidase, subunit II [Escherichia coli BL21(DE... gi\|254160803, gi... - gi\|254160803\|ref\|YP_003043911.1\| cytochrome d terminal oxidase, subunit II [Escherichia coli B str. ... gi\|254591291, gi... - gi\|254791891\|ref\|YP_003076728.1\| cytochrome d terminal oxidase, subunit II [Escherichia coli O157:H7... CYDB_ECOLI - Cytochrome d ubiquinol oxidase subunit 2 (EC 1.10.3.-) (Cytochrome d ubiquinol oxidase subunit II) (... gi\|124501505, gi... - gi\|124526811\|ref\|ZP_01698693.1\| cytochrome d ubiquinol oxidase, subunit II [Escherichia coli B], gi\|... gi\|218704061, gi... - gi\|218704061\|ref\|YP_002411580.1\| cytochrome d terminal oxidase, subunit II [Escherichia coli UMN026]... gi\|218699106, gi... - gi\|218699106\|ref\|YP_002406735.1\| cytochrome d terminal oxidase, subunit II [Escherichia coli IAI39],... CYDB_ECOL6 - Cytochrome bd-I ubiquinol oxidase subunit 2 OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 /... CYDB_ECO57 - Cytochrome bd-I ubiquinol oxidase subunit 2 OS=Escherichia coli O157:H7 GN=cydB PE=3 SV=1 EG10174 - cytochrome d terminal oxidase, subunit II / Cytochrome d (bd-I) ubiquinol oxidase subunit 2; upregul... gi\|15800450, gi\|... - gi\|15800450\|ref\|NP_286462.1\| cytochrome d terminal oxidase polypeptide subunit II [Escherichia coli ... gi\|215263827, gi... - gi\|215485755\|ref\|YP_002328186.1\| cytochrome d terminal oxidase, subunit II [Escherichia coli O127:H6... gi\|209911244, gi... - gi\|209917985\|ref\|YP_002292069.1\| cytochrome d ubiquinol oxidase subunit II [Escherichia coli SE11], ... gi\|73854735, gi\|... - gi\|74311258\|ref\|YP_309677.1\| cytochrome d terminal oxidase polypeptide subunit II [Shigella sonnei S... gi\|218549693, gi... - gi\|218549693\|ref\|YP_002383484.1\| cytochrome d terminal oxidase, subunit II [Escherichia fergusonii A... gi\|188494157, gi... - gi\|75511621\|ref\|ZP_00734272.1\| COG1294: Cytochrome bd-type quinol oxidase, subunit 2 [Escherichia co... gi\|217322792, gi... - gi\|217326571\|ref\|ZP_03442655.1\| cytochrome d ubiquinol oxidase, subunit II [Escherichia coli O157:H7... gi\|218364416, gi... - gi\|218557647\|ref\|YP_002390560.1\| cytochrome d terminal oxidase, subunit II [Escherichia coli S88], g... gi\|218553261, gi... - gi\|218553261\|ref\|YP_002386174.1\| cytochrome d terminal oxidase, subunit II [Escherichia coli IAI1], ... gi\|218350890, gi... - gi\|218694158\|ref\|YP_002401825.1\| cytochrome d terminal oxidase, subunit II [Escherichia coli 55989],... gi\|218688525, gi... - gi\|218688525\|ref\|YP_002396737.1\| cytochrome d terminal oxidase, subunit II [Escherichia coli ED1a], ... gi\|157160216, gi... - gi\|75194894\|ref\|ZP_00704964.1\| COG1294: Cytochrome bd-type quinol oxidase, subunit 2 [Escherichia co... gi\|1651328, gi\|8... - gi\|89107591\|ref\|AP_001371.1\| cytochrome d terminal oxidase, subunit II [Escherichia coli str. K-12 s... gi\|75175933, gi\|... - gi\|75175933\|ref\|ZP_00696120.1\| COG1294: Cytochrome bd-type quinol oxidase, subunit 2 [Shigella boydi... gi\|91209767, gi\|... - gi\|91209767\|ref\|YP_539753.1\| cytochrome d terminal oxidase polypeptide subunit II [Escherichia coli ... gi\|194439246, gi... - gi\|83585335\|ref\|ZP_00923982.1\| COG1294: Cytochrome bd-type quinol oxidase, subunit 2 [Escherichia co... gi\|13360228, gi\|... - gi\|15830023\|ref\|NP_308796.1\| cytochrome d terminal oxidase polypeptide subunit II [Escherichia coli ... gi\|110342533, gi... - gi\|110640941\|ref\|YP_668669.1\| cytochrome D ubiquinol oxidase subunit II [Escherichia coli 536], gi\|1... gi\|192926844, gi... - gi\|75256444\|ref\|ZP_00728102.1\| COG1294: Cytochrome bd-type quinol oxidase, subunit 2 [Escherichia co... gi\|190905679, gi... - gi\|75237350\|ref\|ZP_00721392.1\| COG1294: Cytochrome bd-type quinol oxidase, subunit 2 [Escherichia co... gi\|191167219, gi... - gi\|75229634\|ref\|ZP_00716171.1\| COG1294: Cytochrome bd-type quinol oxidase, subunit 2 [Escherichia co... gi\|75209697, gi\|... - gi\|75209697\|ref\|ZP_00709905.1\| COG1294: Cytochrome bd-type quinol oxidase, subunit 2 [Escherichia co... CYDB_ECOL6 - Cytochrome d ubiquinol oxidase subunit 2 OS=Escherichia coli O6 GN=cydB PE=3 SV=1 gi\|189376477, gi... - gi\|189406108\|ref\|ZP_02826353.2\| cytochrome d ubiquinol oxidase, subunit II [Escherichia coli O157:H7... gi\|189373023, gi... - gi\|189404899\|ref\|ZP_02811906.2\| cytochrome d ubiquinol oxidase, subunit II [Escherichia coli O157:H7... gi\|195939085 - gi\|195939085\|ref\|ZP_03084467.1\| cytochrome d terminal oxidase, subunit II [Escherichia coli O157:H7 ... gi\|194434018, gi... - gi\|194434018\|ref\|ZP_03066289.1\| cytochrome d ubiquinol oxidase, subunit II [Shigella dysenteriae 101... gi\|208815105, gi... - gi\|208815105\|ref\|ZP_03256284.1\| cytochrome d ubiquinol oxidase, subunit II [Escherichia coli O157:H7... gi\|208728662, gi... - gi\|208808861\|ref\|ZP_03251198.1\| cytochrome d ubiquinol oxidase, subunit II [Escherichia coli O157:H7... gi\|209159613, gi... - gi\|209398213\|ref\|YP_002269367.1\| cytochrome d ubiquinol oxidase, subunit II [Escherichia coli O157:H... gi\|208737190, gi... - gi\|208822997\|ref\|ZP_03263315.1\| cytochrome d ubiquinol oxidase, subunit II [Escherichia coli O157:H7... gi\|169888235, gi... - gi\|170080400\|ref\|YP_001729720.1\| cytochrome d terminal oxidase, subunit II [Escherichia coli str. K-... gi\|170020922, gi... - gi\|170020922\|ref\|YP_001725876.1\| cytochrome d ubiquinol oxidase, subunit II [Escherichia coli ATCC 8... gi\|187776421, gi... - gi\|187776421\|ref\|ZP_02992951.1\| cytochrome d ubiquinol oxidase, subunit II [Escherichia coli O157:H7... gi\|170518495, gi... - gi\|170680777\|ref\|YP_001742844.1\| cytochrome d ubiquinol oxidase, subunit II [Escherichia coli SMS-3-... gi\|189402926, gi... - gi\|189402926\|ref\|ZP_03006900.1\| cytochrome d ubiquinol oxidase, subunit II [Escherichia coli O157:H7... gi\|189002960, gi... - gi\|189010039\|ref\|ZP_02804235.2\| cytochrome d ubiquinol oxidase, subunit II [Escherichia coli O157:H7...	0.0	[1..379]	[1..379]
gi\|77972482, gi\|... - gi\|77972482\|ref\|ZP_00828047.1\| COG1294: Cytochrome bd-type quinol oxidase, subunit 2 [Yersinia frede...	0.0	[1..379]	[1..379]
gi\|238726794, gi... - gi\|77978048\|ref\|ZP_00833483.1\| COG1294: Cytochrome bd-type quinol oxidase, subunit 2 [Yersinia inter...	0.0	[1..379]	[1..379]
gi\|34420278 - gi\|34420278\|gb\|AAQ67423.1\| cytochrome d subunit B [Klebsiella oxytoca]	0.0	[1..379]	[1..379]
gi\|82776011, gi\|... - gi\|82776011\|ref\|YP_402358.1\| cytochrome d terminal oxidase polypeptide subunit II [Shigella dysenter...	0.0	[1..379]	[1..379]

Back

Predicted Domain #1

Region A:
Residues: [1-110]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MFDYEVLRFI WWLLIGVLLI GFAVTDGFDM GVGILLRIIG KNDTERRIMI NSIAPHWDGN  60
   61 QVWLITAGGA LFAAWPMVYA AAFSGFYIAM ILVLAALFFR PVGFDYRSKL

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below are all of our structure predictions for this domain.
Click here to view only most confident match.

Found no structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [111-260]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ENSRWRNMWD WGIFIGSFVP AVVFGVAFGN LLQGVPFHMN EYMRLFYTGN FFQLLNPFGL  60
   61 LAGIVSLTML VTQGATYLQM RTRGELHLRS RKAAQISALV MSVAFLLAGI WLVKGIDGFV 120
  121 ITSVLDTAAE SNPMRKEVAH QAGAWLINFN

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

Found no structure predictions for this domain.

Predicted Domain #3

Region A:
Residues: [261-379]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KYPILWALPA LGVILPLFTI LLSRFEKGAW AFLFSSLTIA CVILTAGVTM FPFVMPSSTM  60
   61 PNVSLTMWDA TSSLLTLKVM TIVAIIFVPI ILLYTSWCYY KMFGRIDKEF IENNKHSLY

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below are all of our structure predictions for this domain.
Click here to view only most confident match.

Found no structure predictions for this domain.

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits